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The Crystal Structure of JNK3 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WAJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 16% PEG MME (average Mr=550), 10% ethylene glycol, 20mM beta-mercaptoethanol, 100mM HEPES (pH7.3)
Crystal Properties Matthews coefficient Solvent content 2.3 46.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.956 α = 90 b = 71.003 β = 90 c = 106.966 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2021-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08B1-1 1.1806 CLSI 08B1-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.85 46 100 0.039 25.7 6.4 33935
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.89 0.776
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.85 38.638 33843 1645 99.847 0.212 0.2096 0.221 0.2663 0.2784 43.429
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 5.522 -2.454 -3.068
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.812 r_dihedral_angle_4_deg 19.415 r_dihedral_angle_3_deg 15.369 r_lrange_other 9.076 r_lrange_it 9.064 r_dihedral_angle_1_deg 7.603 r_scangle_it 6.168 r_scangle_other 6.167 r_mcangle_it 5.396 r_mcangle_other 5.395
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.812 r_dihedral_angle_4_deg 19.415 r_dihedral_angle_3_deg 15.369 r_lrange_other 9.076 r_lrange_it 9.064 r_dihedral_angle_1_deg 7.603 r_scangle_it 6.168 r_scangle_other 6.167 r_mcangle_it 5.396 r_mcangle_other 5.395 r_scbond_it 4.264 r_scbond_other 4.264 r_mcbond_other 3.735 r_mcbond_it 3.734 r_angle_refined_deg 1.584 r_angle_other_deg 1.262 r_nbd_other 0.226 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.196 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.17 r_symmetry_xyhbond_nbd_refined 0.142 r_chiral_restr_other 0.123 r_symmetry_nbd_refined 0.111 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.074 r_symmetry_xyhbond_nbd_other 0.023 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2802 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing